Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Value Type Network Comparison Type Gene description Rank Filtered Interaction Map network_comparison red green
Results: HTML CSV LaTeX Showing element 58 to 107 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
description
Rank
network_comparison
red
green
3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213] 1084 1.03011 220.118 213.685
3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530] 897 1.03882 272.878 283.472
38 kda fk-506 binding protein homolog (fkbpr38) (fk506-binding protein 8). [swissprot;acc:q14318] 2358 1.00423 198.181 197.346
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 1745 1.01272 219.423 222.215
40s ribosomal protein s11. [swissprot;acc:p04643] 278 1.10642 241.399 267.088
40s ribosomal protein s13. [swissprot;acc:q02546] 1722 1.01319 220.899 223.813
40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366] 386 1.09029 242.238 264.11
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 304 1.1017 242.339 266.986
40s ribosomal protein s15a. [swissprot;acc:p39027] 292 1.10357 241.411 266.414
40s ribosomal protein s16. [swissprot;acc:p17008] 391 1.09011 241.828 263.62
40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232] 387 1.09029 242.238 264.11
40s ribosomal protein s19. [swissprot;acc:p39019] 861 1.04031 234.025 224.958
40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 344 1.0973 241.625 265.136
40s ribosomal protein s20. [swissprot;acc:p17075] 342 1.09737 243.5 267.21
40s ribosomal protein s21. [swissprot;acc:p35265] 790 1.04578 224.244 234.511
40s ribosomal protein s23. [swissprot;acc:p39028] 324 1.09941 243.944 268.195
40s ribosomal protein s24 (s19). [swissprot;acc:p16632] 1690 1.0138 224.091 227.184
40s ribosomal protein s26. [swissprot;acc:p02383] 454 1.07779 210.224 226.578
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 1102 1.02847 229.442 235.974
40s ribosomal protein s28. [swissprot;acc:p25112] 1982 1.00966 200.343 198.427
40s ribosomal protein s29. [swissprot;acc:p30054] 277 1.10665 241.849 267.642
40s ribosomal protein s3. [swissprot;acc:p23396] 346 1.09729 241.612 265.119
40s ribosomal protein s30. [swissprot;acc:q05472] 1081 1.03027 223.44 216.875
40s ribosomal protein s3a. [swissprot;acc:p49241] 867 1.03981 225.689 234.674
40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 288 1.10517 240.758 266.078
40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 287 266.079
40s ribosomal protein s5. [swissprot;acc:p46782] 366 1.09602 242.473 265.756
40s ribosomal protein s7 (s8). [swissprot;acc:p23821] 2149 1.00686 217.871 219.366
40s ribosomal protein s8. [swissprot;acc:p09058] 1397 1.02145 218.64 214.049
40s ribosomal protein s9. [swissprot;acc:p46781] 439 1.07866 238.986 257.784
40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 789 1.04578 224.244 234.511
43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702] 2232 1.00632 215.547 214.194
44050 protein. [refseq;acc:nm_178832] 2506 1.0025 151.386 151.009
45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5] 2147 1.00688 206.442 207.862
5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478] 879 1.03946 212.002 203.954
5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741] 877
5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131] 876
5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646] 875
5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [swissprot;acc:p54619] 874
5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0] 880
5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9] 878
5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126] 1769 1.01219 223.016 225.734
5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] 1021 1.03204 221.278 214.409
5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [swissprot;acc:p22557] 2491 1.00284 194.527 195.08
5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196] 2496
5-formyltetrahydrofolate cyclo-ligase (ec 6.3.3.2) (5,10-methenyl- tetrahydrofolate synthetase) (methenyl-thf synthetase) (mthfs). [swissprot;acc:p49914] 2754 1.00002 210.638 210.642
5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 1921 1.01012 221.607 219.386
54 kda nuclear rna- and dna-binding protein (p54(nrb)) (p54nrb) (55 kda nuclear protein) (nmt55) (non-pou domain-containing octamer- binding protein) (dna-binding p52/p100 complex, 52 kda subunit). [swissprot;acc:q15233] 2532 1.00214 190.405 190.812
6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858] 1822 1.01151 240.32 243.085
6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237] 1830 1.01144 243.069

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/